DCP2 decapping 2 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: DCP2
Official Full Name: decapping 2
Primary source: TAIR:AT5G13570
Locus tag: AT5G13570
See related: Araport:AT5G13570
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: ATDCP2; decapping 2; INCREASED TRANSGENE SILENCING 1; ITS1; T6I14.5; TDT; TRIDENT
Summary: Encodes DCP2 with mRNA decapping activity. DCP2 forms a mRNA decapping complex with DCP1 (At1g08370) and VCS (VARICOSE) (At3g13300). Recombinant DCP2 is enzymatically active in vitro, generating from capped mRNAs m7GDP, and 5#Aeo-phosphorylated mRNAs. DCP1, DCP2 and VCS colocalize in cytoplasmic loci, which are putative Arabidopsis mRNA processing bodies. Null mutants of DCP1, DCP2, and VCS accumulate capped mRNAs with a reduced degradation rate. These mutants also share a similar lethal phenotype at the seedling cotyledon stage, with disorganized veins, swollen root hairs, and altered epidermal cell morphology. The protein was shown by immunoprecipitation not to interact with DCP1.
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Genomic context

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See DCP2 in Genome Data Viewer

Location:: chromosome: 5

Exon count:: 9

Sequence:: Chromosome: 5; NC_003076.8 (4367262..4370429)

Chromosome 5 - NC_003076.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003076.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

DCP1 and DCP2 respond differently to environmental changes, indicating that P-bodies have diverse DCP1 and DCP2 proportions depending on environmental conditions.
Title: Diffuse decapping enzyme DCP2 accumulates in DCP1 foci under heat stress in Arabidopsis thaliana.
We found that AS2 promotes DCP2 decapping activity, accelerates mRNA turnover rate, inhibits siRNA accumulation and functions as an endogenous suppressor of post-transcriptional gene silencing
Title: Geminivirus Activates ASYMMETRIC LEAVES 2 to Accelerate Cytoplasmic DCP2-Mediated mRNA Turnover and Weakens RNA Silencing in Arabidopsis.
A mutation in AtDCP2 (At5g13570) caused the co-suppression phenotype in the its1 mutant, which displayed increased transgene silencing.
Title: The Arabidopsis DCP2 gene is required for proper mRNA turnover and prevents transgene silencing in Arabidopsis.
Seedling lethal phenotypes in dcp1, dcp2 and vcs mutants are caused the disruption of miRNA-mediated gene regulation.
Title: The role of decapping proteins in the miRNA accumulation in Arabidopsis thaliana.
DCP5 associates with DCP1 and DCP2 and is required for mRNA decapping in vivo. In spite of its association with DCP2, DCP5 has no effect on DCP2 decapping activity in vitro, suggesting that the effect on decapping in vivo is indirect.
Title: Arabidopsis decapping 5 is required for mRNA decapping, P-body formation, and translational repression during postembryonic development.
Mutational analysis of the putative RNA-binding domain of Dcp2 confirmed the functional significance of an 11-residue loop region and the conserved Box B.
Title: Identification of functional domains in Arabidopsis thaliana mRNA decapping enzyme (AtDcp2).
AtDCP2 is essential for post-embryonic development and supplies new insights into the role of decapping-dependent mRNA turnover.
Title: Characterization of Arabidopsis decapping proteins AtDCP1 and AtDCP2, which are essential for post-embryonic development.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_001203375.1

Supported by ESTs:

NM_121360.4

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity	IDA Inferred from Direct Assay more info	PubMed
enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables magnesium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables manganese ion binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within deadenylation-independent decapping of nuclear-transcribed mRNA	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IEA Inferred from Electronic Annotation more info
involved_in post-embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within post-transcriptional gene silencing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in primary shoot apical meristem specification	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in P-body	NAS Non-traceable Author Statement more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: decapping 2

NP_001190304.1

decapping 2 (DCP2); CONTAINS InterPro DOMAIN/s: NUDIX hydrolase domain-like (InterPro:IPR015797), Dcp2, box A (InterPro:IPR007722), NUDIX hydrolase domain (InterPro:IPR000086).

NP_196861.2

decapping 2 (DCP2); CONTAINS InterPro DOMAIN/s: NUDIX hydrolase domain-like (InterPro:IPR015797), Dcp2, box A (InterPro:IPR007722), NUDIX hydrolase, conserved site (InterPro:IPR020084), NUDIX hydrolase domain (InterPro:IPR000086); Has 901 Blast hits to 899 proteins in 331 species: Archae - 18; Bacteria - 332; Metazoa - 132; Fungi - 156; Plants - 50; Viruses - 11; Other Eukaryotes - 202 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003076.8 Reference assembly

Range

4367262..4370429

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_121360.4 → NP_196861.2 decapping 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_196861.2

Status: REVIEWED

UniProtKB/Swiss-Prot

F4K3Z9, Q8GW31, Q9FNB6

UniProtKB/TrEMBL

A0A178UGM0, A0A5S9Y4D6, A0A654G0P1

Conserved Domains (2) summary

cd03672
Location:108 → 249

Dcp2p; mRNA decapping enzyme 2 (Dcp2p), the catalytic subunit, and Dcp1p are the two components of the decapping enzyme complex. Decapping is a key step in both general and nonsense-mediated 5'->3' mRNA-decay pathways. Dcp2p contains an all-alpha helical ...

pfam05026
Location:22 → 104

DCP2; Dcp2, box A domain
NM_001203375.1 → NP_001190304.1 decapping 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001190304.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A178UGM0

Conserved Domains (2) summary

cd03672
Location:108 → 265

Dcp2p; mRNA decapping enzyme 2 (Dcp2p), the catalytic subunit, and Dcp1p are the two components of the decapping enzyme complex. Decapping is a key step in both general and nonsense-mediated 5'->3' mRNA-decay pathways. Dcp2p contains an all-alpha helical ...

pfam05026
Location:22 → 105

DCP2; Dcp2, box A domain